ConservationProfile | |
DB | |
Matrix | base class for matrix patterns, containing methods common
to all |
MatrixSet | an agregate class representing a set of matrix patterns, containing methods for manipulating the set as a whole |
PatternGen | a base class for pattern generators |
PatternGenI | |
PatternI | interface definition for all pattern objects (currently
includes matrices and word (consensus and regular expressions ) |
Site | a nucleotide sequence feature object representing (possibly putative) transcription factor binding site. |
SitePair | |
SitePairSet | a set of TFBS::SitePair objects |
SiteSet | a set of TFBS::Site objects |
TFFM | class for Transcription Factor Flexible Models (TFFMs) |
Word | base class for word-based patterns |
_Iterator | |